title: Structural aspects for the recognition of ATP by ribonucleopeptide receptors.
abstract: A modular structure of ribonucleopeptide (RNP) affords a framework to construct macromolecular receptors and fluorescent sensors. We have isolated ATP-binding RNP with the minimum of nucleotides for ATP binding, in which the RNA consensus sequence is different from those reported for RNA aptamers against the ATP analogues. The three-dimensional structure of the substrate-binding complex of RNP was studied to understand the ATP-binding mechanism of RNP. A combination of NMR measurements, enzymatic and chemical mapping, and nucleotide mutation studies of the RNP-adenosine complex show that RNP interacts with the adenine ring of adenosine by forming a U:A:U triple with two invariant U nucleotides. The observed recognition mode for the adenine ring is different from those of RNA aptamers for ATP derivatives reported previously. The RNP-adenosine complex is folded into a particular structure by formation of the U:A:U triple and a Hoogsteen type A:U base pair. This recognition mechanism was successfully utilized to convert the substrate-binding specificity of RNP from ATP- to GTP-binding with a C(+):G:C triple recognition mode.
authors.affiliation: Institute of Advanced Energy, Kyoto University, Japan.
authors.forename: Shun
authors.initials: S
authors.lastname: Nakano
authors.forename: Tsukasa
authors.initials: T
authors.lastname: Mashima
authors.forename: Akimasa
authors.initials: A
authors.lastname: Matsugami
authors.forename: Masafumi
authors.initials: M
authors.lastname: Inoue
authors.forename: Masato
authors.initials: M
authors.lastname: Katahira
authors.forename: Takashi
authors.initials: T
authors.lastname: Morii
mesh_terms: D000255:Adenosine Triphosphate / Q000737:chemistry* / Q000378:metabolism*; D052157:Aptamers, Nucleotide / Q000737:chemistry; D009682:Magnetic Resonance Spectroscopy; D011487:Protein Conformation; D012261:Ribonucleoproteins / Q000737:chemistry* / Q000378:metabolism*
chemical_list: D052157:Aptamers, Nucleotide; D012261:Ribonucleoproteins; D000255:Adenosine Triphosphate